network

navis.interfaces.neuron.network.NetworkIdIndexer

Source code in navis/interfaces/neuron/network.py

class NetworkIdIndexer:
    def __init__(self, network):
        self.network = network

    def __getitem__(self, id):
        neurons = self.network._neurons_dict
        if utils.is_iterable(id):
            return [neurons[i] for i in id]
        else:
            return neurons[id]

navis.interfaces.neuron.network.PointNeuron

Source code in navis/interfaces/neuron/network.py

class PointNeuron:
    def __init__(self, id, model, label=None, **props):
        self.process = model()
        self.id = id
        self.label = label
        for p, v in props.items():
            setattr(self.process, p, v)

        self.record_spikes()

    def __str__(self):
        return f'{type(self).__name__}<id={self.id},label={self.label}>'

    def __repr__(self):
        return self.__str__()

    def record_spikes(self, threshold=10):
        """Set up spike recording for this neuron."""
        self.spk_timings = neuron.h.Vector()
        self.sp_det = neuron.h.NetCon(self.process, None)
        self.sp_det.record(self.spk_timings)

    def record_state(self):
        """Set up recording of state for this neuron."""
        self.state = neuron.h.Vector()
        self.state.record(self.process._ref_m)

record_spikes

Set up spike recording for this neuron.

Source code in navis/interfaces/neuron/network.py

def record_spikes(self, threshold=10):
    """Set up spike recording for this neuron."""
    self.spk_timings = neuron.h.Vector()
    self.sp_det = neuron.h.NetCon(self.process, None)
    self.sp_det.record(self.spk_timings)

record_state

Set up recording of state for this neuron.

Source code in navis/interfaces/neuron/network.py

def record_state(self):
    """Set up recording of state for this neuron."""
    self.state = neuron.h.Vector()
    self.state.record(self.process._ref_m)

navis.interfaces.neuron.network.Stimulus = namedtuple('Stimulus', ['start', 'stop', 'frequency', 'randomness', 'neurons', 'netstim', 'netcon', 'label']) module-attribute

Note to self: it would best best if PointNetwork would not actually build the model until it's executed. That way we can run the entire simulation in a separate thread (or multiple cores).